abmSHARE
Epidemiological Model abmSHARE
SHARE has become ever more important as a tool for evidence-based policy making due to the outbreak of the COVID-19 pandemic. SHARE is the ideal database to study the non-intended socio-economic and health consequences of the epidemiological containment decisions and the long-term effects of the COVID-19 pandemic due to its life-course and multidisciplinary approach combining health with socio-economic data. The European Commission supports a new COVID-19 research project (SHARE-COVID19) with funds provided by Horizon 2020 and the Coronavirus Global Response.
abmSHARE is an agent-based (also called individual-based or microsimulation) epidemiological spatial model adapted to SHARE and Eurostat data. It was developed for the Horizon SHARE-COVID19 project. The model was developed in collaboration with the Faculty of Biomedical Engineering at the Czech Technical University and the DNAi Ltd. programmers.
The goal of the abmSHARE model is to simulate the spread and impact of Covid-19 and similar epidemiological scenarios through realistic populations, across multiple regions, and under different intervention policies (like lockdowns, vaccines, or testing). The abmSHARE model extends the open source Covasim model into geospatial simulation and incorporation of external data.
Key Features:
- Multi-region modeling (e.g. NUTS‑2 units with inter-regional travel)
- Realistic population dynamics: households, schools, workplaces
- Simulates NPIs, testing, vaccination, reinfections
- Inputs external data from SHARE, Eurostat, or other sources
- All settings can be changed and configured via configurable simple JSON/CSV inputs
abmSHARE in the Google Colab Notebook
The abmSHARE model can be run directly in your browser inside the Google Colab notebook.
Please click abmSHARE model in the Google Colab to open the Google Colab abmSHARE site at Google Colab. There you can follow a detailed documentation and run the model. There is no need for any installation. We would be very grateful for any comments and suggestions.
ambSHARE Credits and Information on its Development
The abmSHARE model is built on Covasim (COVID-19 Agent-based Simulator), an open-source agent-based model developed by the Institute for Disease Modeling available at https://github.com/InstituteforDiseaseModeling/covasim, and build with related SynthPops, an open-source synthetic population constructor developed also by Institute for Disease Modeling available at https://github.com/InstituteforDiseaseModeling/synthpops.
The model is written in python and can be adapted by users to suit their research questions and local context by specifying detailed data on population (age structure, mobility, contacts) and the epidemic (diagnosed cases, hospitalization, deaths). As in the original Covasim model, abmSHARE cab be used to explore theoretical research questions or to make projections, its main purpose is to evaluate the effect of different interventions on the epidemic. These interventions include physical interventions (mobility restrictions and masks), diagnostic interventions (testing, contact tracing, and quarantine), and pharmaceutical interventions (vaccination).
abmSHARE extends the original Covasim model in two important dimensions: it allows epidemiological simulations across geographic regions (countries, NUTS) and is able to input external data as parameters for characterizing these regions in terms of their population, policies, or socio-economic conditions, for example. The abmSHARE includes all information of the Covasim model in region-specific geospatial environment on age structure and population size in each region; realistic transmission networks in different social layers, including households, schools, or workplaces; age-specific epidemiological outcomes; and viral dynamics and transmissibility. The abmSHARE model allows for region-specific policy interventions such as non-pharmaceutical interventions (physical distancing, lockdowns), vaccinations, testing, contact tracing and quarantine, all with detailed time structure and other factors.
We are very grateful to our colleagues who collaborated on the project: Fakulta biomedicínského inženýrství ČVUT, DNAi Ltd, Pireus University, Radim Krupička, Tomáš Krajča, David Jirsa, Markéta Pechholdová, Alevtina Kuznetsova, Tom Dasaklis, Nikolaos Rachaniotis, Platon Tinios.
Further Information and Contacts
The abmSHARE model has been built for the Horizon SHARE-COVID19 project. For further information on the model, how to become a user, for collaboration, please contact the SHARE-CZ team at 📧 radim.bohacek@cerge-ei.cz.